MD09G1049200.v1.1

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
OG0007692
Physical Location & Seq
Reverse (-)
3252841 .. 3257435
4595 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1049200.v1.1.491

Sequence Viewer

Length: 1116 bp
ATGGACTTTGCTTTCAAACGAATAACAATCTTTAGACATTTAATAAAAAAAGAACGATCTTTGGACATTAAAGCAATACGCCACCGTTTTCGTGAATCATTTCATTTGGTCAACACTTTTTACCTATTTCTTTTTGTTAATTTTACGAAAAAAGAACCTTTTTGGCTTTATGATTATTCTACCCAACAGAAAACTAGATCATTCCCCGCCAATCGGATCGTAAAGGTCTCCGACGGCGGCACAAAGGGATTAGCCCACGCTCCTCCAACGGCAATCGAACGCCACGCTCCTCTTCTTCTTCGTTGGAGCCTCTCACAGTGCTCCCGATTCAAGAACTGGTTCTCTCAATCCGGTTTTTTCGGGAAAATGTATCCGGGTGGTTACACCGCTGAAGTTACAAGTTTGTCCCCTAAAGCTACAGAGGAGGATGTTTACAATTTTTTCGGTCATTGTGGTGCAGTTGAGCATGTTGAAATCATCAGATCCGGTGAATATGCCTCTACTGCATATGTGACATTCAGAGATGCTTTTGCTCTGCAAACTGCGATATTACTCAGCGGAGCTAGGATCGTAGATCAATGTGTATGCATAACAAGTTGGGGAAGTTATATCGATGAATCCGATGCTTGGAACGGTTCTACTTATCCCGAAGGCAATACTAGCTCAACGACTTATCACTCGAGTCAGTTCGTCTCTACCCCCGGAGAAGCAGTAACGGTAGTCAAAACACTGGCATCCAAGGGATATGTTTTGGGAAAAGACGCATTAACCAAGGCCAAAGCTTTCGACGAGTCCCATCAACTCTCAGCAACTGCAGCAGCCAAGGTTTGTGAGCTCAGCGACAGAATCGGCCTCACTGAAAAAATTCACGCAGGCAGGGAAGTTGTCAAAACCGTGGACGAGAAGTTCCATGTTTCGGATATCACCAAATCAGCTGCAACCGTTACTGGAACGGCGGTGGTGGTGGCAGCTACGTATACTGGGGAAGCAGCTGTGGCAGCAGGAAGCGCTGTGGTCAACAGCAGCTACTTTGCTAAGGGAGCTCTTTGGTTTTCAGATGTATTGACTCGTGCAAGCAAAGCTGCAGCTGATTTGGGTAGTCATGGCGGTAACTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0097159 GO:1901363
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RRM_1

Protein Analysis

372

Amino Acids

40.64

Weight (kDa)

8.9

Isoelectric Point (pI)

30.15

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 132 - 190 1e-06 RNA recognition motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 977
AciI CCGC 6 cut(s) 207, 237, 387, 558, 956, 1107
AclWI GGATC 3 cut(s) 224, 477, 575
AcsI RAATTY 1 cut(s) 864
AcuI CTGAAG 1 cut(s) 411
AfeI AGCGCT 1 cut(s) 1009
AfiI CCNNNNNNNGG 3 cut(s) 213, 627, 916
AgsI TTSAA 3 cut(s) 16, 331, 473
AloI GAACNNNNNNTCC 2 cut(s) 890, 922
Alw21I GWGCWC 3 cut(s) 323, 837, 1045
Alw26I GTCTC 2 cut(s) 232, 697
AlwI GGATC 3 cut(s) 224, 477, 575
AlwNI CAGNNNCTG 1 cut(s) 812
Ama87I CYCGRG 1 cut(s) 679
Aor51HI AGCGCT 1 cut(s) 1009
AoxI GGCC 2 cut(s) 774, 850
ApeKI GCWGC 9 cut(s) 815, 818, 935, 968, 989, 998, 1023, 1082, 1085
ApoI RAATTY 1 cut(s) 864
Asp700I GAANNNNTTC 3 cut(s) 99, 338, 864
AspLEI GCGC 1 cut(s) 1010
AsuC2I CCSGG 2 cut(s) 375, 702
AsuHPI GGTGA 2 cut(s) 500, 916
AvaI CYCGRG 1 cut(s) 679
BanII GRGCYC 2 cut(s) 837, 1045
BauI CACGAG 1 cut(s) 1068
Bbv12I GWGCWC 3 cut(s) 323, 837, 1045
BbvI GCAGC 9 cut(s) 827, 830, 922, 980, 1001, 1010, 1035, 1069, 1097
BccI CCATC 1 cut(s) 804
BceAI ACGGC 3 cut(s) 250, 285, 969
BciVI GTATCC 1 cut(s) 381
BcnI CCSGG 2 cut(s) 375, 702
BcoDI GTCTC 2 cut(s) 232, 697
BfaI CTAG 3 cut(s) 195, 564, 660
BfmI CTRYAG 3 cut(s) 417, 813, 1083
BfoI RGCGCY 1 cut(s) 1011
BfuI GTATCC 1 cut(s) 381
BlpI GCTNAGC 1 cut(s) 836
Bme1390I CCNGG 2 cut(s) 375, 702
BmeT110I CYCGRG 1 cut(s) 679
BmiI GGNNCC 1 cut(s) 308
BmrFI CCNGG 2 cut(s) 375, 702
BmrI ACTGGG 1 cut(s) 990
BmsI GCATC 3 cut(s) 514, 613, 743
BmuI ACTGGG 1 cut(s) 990
Bpu10I CCTNAGC 1 cut(s) 1035
Bpu1102I GCTNAGC 1 cut(s) 836
BpuMI CCSGG 2 cut(s) 375, 702
Bsa29I ATCGAT 1 cut(s) 612
BsaAI YACGTR 1 cut(s) 975
BsaI GGTCTC 1 cut(s) 232
BsaJI CCNNGG 5 cut(s) 700, 738, 771, 822, 894
BsaWI WCCGGW 2 cut(s) 350, 485
BsaXI ACNNNNNCTCC 2 cut(s) 696, 726
Bsc4I CCNNNNNNNGG 3 cut(s) 213, 627, 916
Bse1I ACTGG 4 cut(s) 341, 735, 952, 985
BseCI ATCGAT 1 cut(s) 612
BseDI CCNNGG 5 cut(s) 700, 738, 771, 822, 894
BseGI GGATG 2 cut(s) 433, 734
BseLI CCNNNNNNNGG 3 cut(s) 213, 627, 916
BseMII CTCAG 3 cut(s) 568, 819, 850
BseNI ACTGG 4 cut(s) 341, 735, 952, 985
BseRI GAGGAG 3 cut(s) 252, 279, 437
BseXI GCAGC 9 cut(s) 827, 830, 922, 980, 1001, 1010, 1035, 1069, 1097
BsgI GTGCAG 1 cut(s) 477
BshFI GGCC 2 cut(s) 776, 852
BshVI ATCGAT 1 cut(s) 612
BsiHKAI GWGCWC 3 cut(s) 323, 837, 1045
BsiHKCI CYCGRG 1 cut(s) 679
BsiSI CCGG 4 cut(s) 351, 374, 486, 702
BslFI GGGAC 2 cut(s) 391, 778
BslI CCNNNNNNNGG 3 cut(s) 213, 627, 916
BsmAI GTCTC 2 cut(s) 232, 697
BsmBI CGTCTC 1 cut(s) 697
BsmFI GGGAC 2 cut(s) 391, 778
BsnI GGCC 2 cut(s) 776, 852
Bso31I GGTCTC 1 cut(s) 232
BsoBI CYCGRG 1 cut(s) 679
Bsp1286I GDGCHC 3 cut(s) 323, 837, 1045
Bsp143I GATC 6 cut(s) 56, 197, 216, 482, 567, 574
Bsp1720I GCTNAGC 1 cut(s) 836
BspACI CCGC 6 cut(s) 207, 237, 387, 558, 956, 1107
BspANI GGCC 2 cut(s) 776, 852
BspCNI CTCAG 3 cut(s) 567, 818, 849
BspDI ATCGAT 1 cut(s) 612
BspLI GGNNCC 1 cut(s) 308
BspMAI CTGCAG 2 cut(s) 817, 1087
BspPI GGATC 3 cut(s) 224, 477, 575
BspTNI GGTCTC 1 cut(s) 232
BsrI ACTGG 4 cut(s) 341, 735, 952, 985
BssECI CCNNGG 5 cut(s) 700, 738, 771, 822, 894
BssMI GATC 6 cut(s) 56, 197, 216, 482, 567, 574
BssNAI GTATAC 1 cut(s) 978
BssSI CACGAG 1 cut(s) 1068
BssT1I CCWWGG 3 cut(s) 738, 771, 822
Bst1107I GTATAC 1 cut(s) 978
Bst2BI CACGAG 1 cut(s) 1068
Bst4CI ACNGT 6 cut(s) 86, 318, 635, 718, 895, 943
Bst6I CTCTTC 1 cut(s) 297
BstBAI YACGTR 1 cut(s) 975
BstC8I GCNNGC 2 cut(s) 874, 1075
BstDEI CTNAG 4 cut(s) 554, 805, 836, 1035
BstDSI CCRYGG 1 cut(s) 894
BstF5I GGATG 2 cut(s) 433, 734
BstH2I RGCGCY 1 cut(s) 1011
BstHHI GCGC 1 cut(s) 1010
BstKTI GATC 6 cut(s) 59, 200, 219, 485, 570, 577
BstMAI GTCTC 2 cut(s) 232, 697
BstMBI GATC 6 cut(s) 56, 197, 216, 482, 567, 574
BstMWI GCNNNNNNNGC 8 cut(s) 503, 660, 815, 995, 998, 1007, 1040, 1079
BstNSI RCATGY 1 cut(s) 470
BstSCI CCNGG 2 cut(s) 373, 700
BstSFI CTRYAG 3 cut(s) 417, 813, 1083
BstSNI TACGTA 1 cut(s) 975
BstV1I GCAGC 9 cut(s) 827, 830, 922, 980, 1001, 1010, 1035, 1069, 1097
BstX2I RGATCY 1 cut(s) 482
BstYI RGATCY 1 cut(s) 482
BstZ17I GTATAC 1 cut(s) 978
Bsu15I ATCGAT 1 cut(s) 612
BsuI GTATCC 1 cut(s) 381
BsuRI GGCC 2 cut(s) 776, 852
BsuTUI ATCGAT 1 cut(s) 612
BtgI CCRYGG 1 cut(s) 894
BtsCI GGATG 2 cut(s) 433, 734
BtsIMutI CAGTG 3 cut(s) 323, 728, 855
Cac8I GCNNGC 2 cut(s) 874, 1075
CaiI CAGNNNCTG 1 cut(s) 812
CfoI GCGC 1 cut(s) 1010
ClaI ATCGAT 1 cut(s) 612
CseI GACGC 1 cut(s) 770
CviAII CATG 3 cut(s) 467, 911, 1103
DdeI CTNAG 4 cut(s) 554, 805, 836, 1035
DpnI GATC 6 cut(s) 58, 199, 218, 484, 569, 576
DpnII GATC 6 cut(s) 56, 197, 216, 482, 567, 574
Eam1104I CTCTTC 1 cut(s) 297
EarI CTCTTC 1 cut(s) 297
Ecl136II GAGCTC 2 cut(s) 835, 1043
Eco105I TACGTA 1 cut(s) 975
Eco130I CCWWGG 3 cut(s) 738, 771, 822
Eco24I GRGCYC 2 cut(s) 837, 1045
Eco31I GGTCTC 1 cut(s) 232
Eco32I GATATC 1 cut(s) 922
Eco47III AGCGCT 1 cut(s) 1009
Eco53kI GAGCTC 2 cut(s) 835, 1043
Eco57I CTGAAG 1 cut(s) 411
Eco88I CYCGRG 1 cut(s) 679
EcoICRI GAGCTC 2 cut(s) 835, 1043
EcoRV GATATC 1 cut(s) 922
EcoT14I CCWWGG 3 cut(s) 738, 771, 822
EcoT22I ATGCAT 1 cut(s) 590
EcoT38I GRGCYC 2 cut(s) 837, 1045
ErhI CCWWGG 3 cut(s) 738, 771, 822
Esp3I CGTCTC 1 cut(s) 697
FaeI CATG 3 cut(s) 470, 914, 1106
FaqI GGGAC 2 cut(s) 391, 778
FatI CATG 3 cut(s) 466, 910, 1102
FauI CCCGC 1 cut(s) 214
FauNDI CATATG 1 cut(s) 508
FblI GTMKAC 1 cut(s) 977
FokI GGATG 2 cut(s) 440, 721
FriOI GRGCYC 2 cut(s) 837, 1045
FspBI CTAG 3 cut(s) 195, 564, 660
GlaI GCGC 1 cut(s) 1009
HaeII RGCGCY 1 cut(s) 1011
HaeIII GGCC 2 cut(s) 776, 852
HapII CCGG 4 cut(s) 351, 374, 486, 702
HgaI GACGC 1 cut(s) 770
HhaI GCGC 1 cut(s) 1010
Hin1II CATG 3 cut(s) 470, 914, 1106
Hin6I GCGC 1 cut(s) 1008
HinP1I GCGC 1 cut(s) 1008
HincII GTYRAC 2 cut(s) 112, 1018
HindII GTYRAC 2 cut(s) 112, 1018
HindIII AAGCTT 1 cut(s) 780
HinfI GANTC 7 cut(s) 95, 327, 617, 682, 791, 846, 1066
HpaII CCGG 4 cut(s) 351, 374, 486, 702
HphI GGTGA 2 cut(s) 500, 916
Hpy166II GTNNAC 5 cut(s) 112, 433, 898, 978, 1018
Hpy188I TCNGA 7 cut(s) 216, 232, 482, 521, 622, 919, 1057
Hpy188III TCNNGA 5 cut(s) 92, 324, 331, 361, 647
Hpy8I GTNNAC 5 cut(s) 112, 433, 898, 978, 1018
Hpy99I CGWCG 2 cut(s) 236, 791
HpyAV CCTTC 1 cut(s) 644
HpyCH4III ACNGT 6 cut(s) 86, 318, 635, 718, 895, 943
HpyCH4IV ACGT 1 cut(s) 974
HpyCH4V TGCA 8 cut(s) 458, 506, 538, 588, 815, 938, 1073, 1085
HpyF10VI GCNNNNNNNGC 8 cut(s) 503, 660, 815, 995, 998, 1007, 1040, 1079
HpyF3I CTNAG 4 cut(s) 554, 805, 836, 1035
HpySE526I ACGT 1 cut(s) 974
Hsp92II CATG 3 cut(s) 470, 914, 1106
HspAI GCGC 1 cut(s) 1008
Kzo9I GATC 6 cut(s) 56, 197, 216, 482, 567, 574
LmnI GCTCC 6 cut(s) 265, 292, 306, 326, 560, 1040
Lsp1109I GCAGC 9 cut(s) 827, 830, 922, 980, 1001, 1010, 1035, 1069, 1097
LweI GCATC 3 cut(s) 514, 613, 743
MaeI CTAG 3 cut(s) 195, 564, 660
MaeII ACGT 1 cut(s) 974
MaeIII GTNAC 6 cut(s) 380, 394, 511, 712, 943, 1109
MalI GATC 6 cut(s) 58, 199, 218, 484, 569, 576
MboI GATC 6 cut(s) 56, 197, 216, 482, 567, 574
MboII GAAGA 3 cut(s) 284, 287, 290
MflI RGATCY 1 cut(s) 482
MhlI GDGCHC 3 cut(s) 323, 837, 1045
MluCI AATT 3 cut(s) 139, 436, 864
MlyI GAGTC 3 cut(s) 691, 800, 1060
MmeI TCCRAC 3 cut(s) 255, 284, 290
MnlI CCTC 7 cut(s) 273, 300, 320, 415, 418, 508, 863
Mph1103I ATGCAT 1 cut(s) 590
MroXI GAANNNNTTC 3 cut(s) 99, 338, 864
MseI TTAA 4 cut(s) 41, 69, 138, 767
MslI CAYNNNNRTG 1 cut(s) 453
MspA1I CMGCKG 5 cut(s) 389, 558, 935, 992, 1088
MspI CCGG 4 cut(s) 351, 374, 486, 702
MspR9I CCNGG 2 cut(s) 375, 702
MwoI GCNNNNNNNGC 8 cut(s) 503, 660, 815, 995, 998, 1007, 1040, 1079
NciI CCSGG 2 cut(s) 375, 702
NdeI CATATG 1 cut(s) 508
NdeII GATC 6 cut(s) 56, 197, 216, 482, 567, 574
NlaIII CATG 3 cut(s) 470, 914, 1106
NlaIV GGNNCC 1 cut(s) 308
NmuCI GTSAC 1 cut(s) 511
NsiI ATGCAT 1 cut(s) 590
NspI RCATGY 1 cut(s) 470
PaeR7I CTCGAG 1 cut(s) 679
PcsI WCGNNNNNNNCGW 1 cut(s) 618
PdmI GAANNNNTTC 3 cut(s) 99, 338, 864
PfeI GAWTC 4 cut(s) 95, 327, 617, 846
PleI GAGTC 3 cut(s) 690, 799, 1060
PpsI GAGTC 3 cut(s) 690, 799, 1060
Ppu21I YACGTR 1 cut(s) 975
Psp124BI GAGCTC 2 cut(s) 837, 1045
PspN4I GGNNCC 1 cut(s) 308
PspXI VCTCGAGB 1 cut(s) 679
PstI CTGCAG 2 cut(s) 817, 1087
PstNI CAGNNNCTG 1 cut(s) 812
PsuI RGATCY 1 cut(s) 482
PvuII CAGCTG 3 cut(s) 935, 992, 1088
RseI CAYNNNNRTG 1 cut(s) 453
SacI GAGCTC 2 cut(s) 837, 1045
SaqAI TTAA 4 cut(s) 41, 69, 138, 767
Sau3AI GATC 6 cut(s) 56, 197, 216, 482, 567, 574
SchI GAGTC 3 cut(s) 691, 800, 1060
ScrFI CCNGG 2 cut(s) 375, 702
SduI GDGCHC 3 cut(s) 323, 837, 1045
SfaNI GCATC 3 cut(s) 514, 613, 743
SfcI CTRYAG 3 cut(s) 417, 813, 1083
Sfr274I CTCGAG 1 cut(s) 679
SlaI CTCGAG 1 cut(s) 679
SmiMI CAYNNNNRTG 1 cut(s) 453
SmlI CTYRAG 1 cut(s) 679
SmoI CTYRAG 1 cut(s) 679
SnaBI TACGTA 1 cut(s) 975
Sse9I AATT 3 cut(s) 139, 436, 864
SsiI CCGC 6 cut(s) 207, 237, 387, 558, 956, 1107
SspMI CTAG 3 cut(s) 195, 564, 660
SstI GAGCTC 2 cut(s) 837, 1045
StyD4I CCNGG 2 cut(s) 373, 700
StyI CCWWGG 3 cut(s) 738, 771, 822
TaaI ACNGT 6 cut(s) 86, 318, 635, 718, 895, 943
TaiI ACGT 1 cut(s) 977
TaqI TCGA 4 cut(s) 276, 612, 680, 786
TaqII GACCGA 1 cut(s) 434
TasI AATT 3 cut(s) 139, 436, 864
TauI GCSGC 1 cut(s) 240
TfiI GAWTC 4 cut(s) 95, 327, 617, 846
Tru1I TTAA 4 cut(s) 41, 69, 138, 767
Tru9I TTAA 4 cut(s) 41, 69, 138, 767
TscAI CASTG 3 cut(s) 323, 735, 862
TseFI GTSAC 1 cut(s) 511
TseI GCWGC 9 cut(s) 815, 818, 935, 968, 989, 998, 1023, 1082, 1085
Tsp45I GTSAC 1 cut(s) 511
TspDTI ATGAA 2 cut(s) 92, 630
TspRI CASTG 3 cut(s) 323, 735, 862
XapI RAATTY 1 cut(s) 864
XceI RCATGY 1 cut(s) 470
XhoI CTCGAG 1 cut(s) 679
XmiI GTMKAC 1 cut(s) 977
XmnI GAANNNNTTC 3 cut(s) 99, 338, 864
XspI CTAG 3 cut(s) 195, 564, 660
Zsp2I ATGCAT 1 cut(s) 590
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.